Abstract
Expressed Sequence Tags (ESTs) with comprehensive transcript information are valuable resources for development of molecular markers as they are derived from conserved genic regions. The present study highlights the mining of EST database to deduce the class I hyper variable SSRs in A. sativum. From 21694 garlic EST sequences, 642 non-redundant SSRs were identified with an average frequency of 1 per 14.9 kb of garlic transcriptome. The most abundant SSR motifs were the mononucleotides (32.86%) followed by trinucleotides (28.50%) and dinucleotides (13.39%). Among the individual SSRs, (A/T)n accounted for the highest number (137; 21.33%) followed by (G/C)n (74; 11.52%) and (AAG)n (63;9.81%). Primers designed from a robust set of 7 AsESTSSRs resulted in the amplification of 63 polymorphic alleles in 14 accessions of garlic. The resolving power of the markers varied from 4.286 (AsSSR7) to 18.143 (AsSSR13) while the average marker index (MI) was 5.087. These EST-SSRs markers for garlic could be useful for the improvement of garlic linkage map and could be used for evaluating genetic variation and comparative genomics studies in Allium species.
Highlights
Garlic (Allium sativum L.), the “spice of life” is a unique monocot plant from the economically important family Liliaceae
Continuous domestication of preferred genotypes together with their exclusive asexual propagation have eroded the genetic base of this crop and make the plant vulnerable to various biotic and abiotic stresses which together attributes for upto
Expressed Sequence Tags (ESTs)-SSRs are more advantageous than the genomic SSRs due to their easy availability and high transferability to related species thereby serving as reliable markers for gene mapping analyses [12]
Summary
Garlic (Allium sativum L.), the “spice of life” is a unique monocot plant from the economically important family Liliaceae. It is highly essential to develop Methodology: efficient and reliable molecular markers to analyse the genetic A total of 21,694 expressed sequence tag (EST) sequences were diversity among garlic species for conservation of germplasm downloaded from the dbEST database hosted in GenBank at and improvement of the extant crop. EST-SSRs are more advantageous than the genomic SSRs due to their easy availability and high transferability to related species thereby serving as reliable markers for gene mapping analyses [12].
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